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OGG batch encoding possible on windows system???

Is there ANY way to create a batch encoding of uncompressed .MOV files on a windows system into .OGG video files?

Basically SUPER batches files that are damaged (green artifacts)
I´ve got clean examples out of VLC in single transcodings, but once I switch to batch encodings the stream breaks (as you probably already know)
ffmpeg with an WinFF GUI frontend does the same